Sentence examples for multiple assemblies with from inspiring English sources

To generate contigs representing (simulated) transcripts having a wide range of expression levels, Trans-ABySS performed multiple assemblies with appropriate parameter settings, and then merged the resulting contig sets into a meta-assembly of non-redundant contigs.

Performing multiple assemblies with various k-mer lengths and to retain the best part of each one to form the final assembly has been shown effective for de novo transcriptome assembly [ 50].

The PAVE data management system uses a MySQL database to store multiple libraries of ESTs along with their metadata; the management system allows multiple assemblies with variations on libraries and parameters.

The quality filtered sequence reads were assembled using the GS de novo sequence assembler v.2.5.3 (Roche 454 Life Sciences, Branford, CT, USA) and multiple assemblies were performed with modified parameters (i.e. adjusting minimum overlap length).

Multiple assemblies were generated with varying parameters to account for potential gene collapse or artificial duplication/expansion, which is a significant problem for regions with shared sequence or many repeats.

Trimming approaches focus on: a stricter read-trimming based on quality scores, adaptor removal [e.g. with LUCY (Chou and Holmes, 2001)], but also more sophisticated approaches such as multiple assembly strategies with reads obtained by applying several trimming settings (http://www.genome.ou.edu/informatics.html).html

This analysis identified many sequences occurring in multiple assemblies, which were highly abundant in one sample (consistent with this being their true origin) but were very low in abundance (<10-fold lower) in other assemblies (consistent with cross-contamination).

The initial assembly of pooled 454 BAC sequences showed 40% inflation compared with estimated insert sizes, which likely was caused by multiple assemblies of repetitive sequences.

Previous studies have shown that using multiple assemblies, at varying k-mer values, captures more lowly expressed transcripts when compared with a single k-mer assembly [ 44].

The assemblies generated with k-mer lengths of 23, 25, 27, and 29 base pairs were combined through meta-assembly which extends contigs found in multiple assemblies and retains contigs found in only one.

Multiple assemblies were conducted to calibrate the optimum kmers parameters.